PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Brast08G014500.2.p
Organism
Brachypodium stacei
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family C3H
Protein Properties Length: 341aa    MW: 36405.2 Da    PI: 8.8423
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast08G014500.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH48.21.8e-15264289126
                         --S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                         +ktelC+ + +tG C+yGd+C+FaHg
  Brast08G014500.2.p 264 FKTELCNKWEETGACPYGDQCQFAHG 289
                         79***********************8 PP
2zf-CCCH192.5e-06302327126
                         --S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                         ykte Cr  +  G C+yG rC+F H+
  Brast08G014500.2.p 302 YKTEVCRMVLGRGLCPYGHRCHFRHS 327
                         9******999999**********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.9E-18260295IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-10261295IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.863263291IPR000571Zinc finger, CCCH-type
SMARTSM003561.7E-9263290IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-12264289IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.3E-12297327IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-8298328IPR000571Zinc finger, CCCH-type
SMARTSM003562.6E-4301328IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.202301329IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 341 aa     Download sequence    Send to blast
MAMMQEALHH PAHTDGVHSA VVLGSKSKPL GFGDGRFSSP NGDGLFYGGY SPFTPSPRPS  60
PRTTLLSPWS SSSSGSHVDD GDGKAATEHR LRLARLALQY QDAANRYEFC LSHLADAARE  120
AAALRLENHE LRVANNDLAG RFAMLGGSQD SAIALADELR RLQLATAQTV PGPPMPMPMP  180
PVSPAEKHAG LPKSISIRSS GYVKTTQTGG KHRAGKPMNV GSRVFVGVDG AKPAAELNGG  240
GGGGEKGEAL KGGLEFEVYS QGMFKTELCN KWEETGACPY GDQCQFAHGI AELRPIIRHP  300
RYKTEVCRMV LGRGLCPYGH RCHFRHSITP ADAGHHLLRP *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A2e-23264327467Butyrate response factor 2
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapBrast08G014500.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0985714e-95AC098571.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1126_B10, complete sequence.
GenBankAC0988324e-95AC098832.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1268_B08, complete sequence.
GenBankAK1063544e-95AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
GenBankAP0149614e-95AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBankCP0126134e-95CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003565872.20.0zinc finger CCCH domain-containing protein 39 isoform X2
RefseqXP_014754275.10.0zinc finger CCCH domain-containing protein 39 isoform X1
SwissprotQ6L5G11e-120C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBLA0A0Q3FZF20.0A0A0Q3FZF2_BRADI; Uncharacterized protein
TrEMBLI1HG550.0I1HG55_BRADI; Uncharacterized protein
STRINGBRADI2G15670.10.0(Brachypodium distachyon)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66810.11e-43C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]